Non-Coastal Ordinations for Virginia Reference Streams
R version 4.0.3 (2020-10-10) – “Bunny-Wunnies Freak Out”
Packages used for NMDS: vegan (version 2.5-7)
Methods
The document shows a series of NMDS ordinations for reference benthic communities in Virginia with environmental characteristics overlaid to evaluate natural differences in community compositions across Virginia. These NMDS will support the Genus level IBI development process. This analysis is the first run of all of reference sites in Virginia. No West Virginia DEP data is used in this analysis.Reference sites were evaluated by regional biologists.
The dataset used includes all reference stations collected in Virginia that were deemed reference through a series or water quality parameter filters and regional biologist review. If stations appeared in the dataset more than 4 times, then the most recent 4 samples were used and the rest removed. Samples that had a total number of taxa below 100 collected at the time of sampling were also removed. Taxa that occurred in the dataset <= 5% of the time were removed. The data was log10 +1 transformed. Environmental factors were compiled for each station and used to plot over the NMDS to show environmental variation associated with the community matrix. The envfit function in Vegan was used to plot the continuous environmental variables. Some environmental variables like precipitation, slope, and elevation have not been calculated for all watersheds yet and will be added at a later date.
The first step was to read in the reference site bug taxa list and environmental factors dataset for each station. Join the environmental dataset with the bug dataset to account for multiple observations of each station and collection date and time.
Check to make sure the bug and environmental join was successful:
Number of rows in Community Matrix: 684
Number or rows in Environmental Matrix: 686
The data was log10+1 transformed. Rare taxa (<=5%) were removed.
NMDS Results for Non-Coastal Streams
## Run 0 stress 0.1769464
## Run 1 stress 0.1776646
## Run 2 stress 0.1781069
## Run 3 stress 0.178256
## Run 4 stress 0.1778438
## Run 5 stress 0.1771374
## ... Procrustes: rmse 0.003782098 max resid 0.06943787
## Run 6 stress 0.1775166
## Run 7 stress 0.1775328
## Run 8 stress 0.1774185
## ... Procrustes: rmse 0.003225147 max resid 0.05992768
## Run 9 stress 0.1780499
## Run 10 stress 0.1773238
## ... Procrustes: rmse 0.003868244 max resid 0.08968602
## Run 11 stress 0.1779762
## Run 12 stress 0.1771103
## ... Procrustes: rmse 0.003356777 max resid 0.0555882
## Run 13 stress 0.1775426
## Run 14 stress 0.1769447
## ... New best solution
## ... Procrustes: rmse 0.003086186 max resid 0.06951657
## Run 15 stress 0.177934
## Run 16 stress 0.1774385
## ... Procrustes: rmse 0.002603155 max resid 0.06109393
## Run 17 stress 0.177304
## ... Procrustes: rmse 0.003275456 max resid 0.05714009
## Run 18 stress 0.177853
## Run 19 stress 0.177531
## Run 20 stress 0.177498
## Run 21 stress 0.1774986
## Run 22 stress 0.1780991
## Run 23 stress 0.1784607
## Run 24 stress 0.1774034
## ... Procrustes: rmse 0.002862363 max resid 0.06090959
## Run 25 stress 0.177308
## ... Procrustes: rmse 0.003251951 max resid 0.05704288
## Run 26 stress 0.1776224
## Run 27 stress 0.1779632
## Run 28 stress 0.177462
## Run 29 stress 0.1781846
## Run 30 stress 0.1776586
## Run 31 stress 0.1774481
## Run 32 stress 0.1774057
## ... Procrustes: rmse 0.002425366 max resid 0.060838
## Run 33 stress 0.17809
## Run 34 stress 0.1774547
## Run 35 stress 0.1771435
## ... Procrustes: rmse 0.002905321 max resid 0.04813761
## Run 36 stress 0.1785354
## Run 37 stress 0.1770403
## ... Procrustes: rmse 0.002153709 max resid 0.03542744
## Run 38 stress 0.1773808
## ... Procrustes: rmse 0.003237235 max resid 0.06064025
## Run 39 stress 0.1778382
## Run 40 stress 0.1786644
## Run 41 stress 0.1775094
## Run 42 stress 0.1781265
## Run 43 stress 0.1779083
## Run 44 stress 0.1783387
## Run 45 stress 0.1769632
## ... Procrustes: rmse 0.002738949 max resid 0.06971949
## Run 46 stress 0.1771694
## ... Procrustes: rmse 0.002622685 max resid 0.04860846
## Run 47 stress 0.180818
## Run 48 stress 0.1772553
## ... Procrustes: rmse 0.00492068 max resid 0.09048475
## Run 49 stress 0.1782581
## Run 50 stress 0.1770994
## ... Procrustes: rmse 0.002193849 max resid 0.05581955
## Run 51 stress 0.1770671
## ... Procrustes: rmse 0.002897543 max resid 0.05588776
## Run 52 stress 0.1770755
## ... Procrustes: rmse 0.003015627 max resid 0.05593065
## Run 53 stress 0.1774996
## Run 54 stress 0.1775033
## Run 55 stress 0.1772434
## ... Procrustes: rmse 0.005007727 max resid 0.08888499
## Run 56 stress 0.1779678
## Run 57 stress 0.1771667
## ... Procrustes: rmse 0.003903345 max resid 0.0697899
## Run 58 stress 0.1774129
## ... Procrustes: rmse 0.004313488 max resid 0.08610317
## Run 59 stress 0.1780053
## Run 60 stress 0.1800632
## Run 61 stress 0.1774328
## ... Procrustes: rmse 0.004597194 max resid 0.09006173
## Run 62 stress 0.177312
## ... Procrustes: rmse 0.003670378 max resid 0.05569736
## Run 63 stress 0.1773293
## ... Procrustes: rmse 0.00436644 max resid 0.09158152
## Run 64 stress 0.1774622
## Run 65 stress 0.1774161
## ... Procrustes: rmse 0.00387867 max resid 0.06960798
## Run 66 stress 0.1775918
## Run 67 stress 0.1769436
## ... New best solution
## ... Procrustes: rmse 0.003434656 max resid 0.06916175
## Run 68 stress 0.1776042
## Run 69 stress 0.1842772
## Run 70 stress 0.1776841
## Run 71 stress 0.1777671
## Run 72 stress 0.1778805
## Run 73 stress 0.1776724
## Run 74 stress 0.1776692
## Run 75 stress 0.1777954
## Run 76 stress 0.1777871
## Run 77 stress 0.1771688
## ... Procrustes: rmse 0.00346652 max resid 0.04930093
## Run 78 stress 0.1769471
## ... Procrustes: rmse 0.002588364 max resid 0.04874967
## Run 79 stress 0.1782058
## Run 80 stress 0.1771403
## ... Procrustes: rmse 0.003541084 max resid 0.06921202
## Run 81 stress 0.1769346
## ... New best solution
## ... Procrustes: rmse 0.003649282 max resid 0.06888104
## Run 82 stress 0.1772535
## ... Procrustes: rmse 0.005006741 max resid 0.08889739
## Run 83 stress 0.177702
## Run 84 stress 0.1773375
## ... Procrustes: rmse 0.004763335 max resid 0.09073254
## Run 85 stress 0.1769141
## ... New best solution
## ... Procrustes: rmse 0.002297921 max resid 0.04674016
## Run 86 stress 0.1778882
## Run 87 stress 0.1780537
## Run 88 stress 0.1774092
## ... Procrustes: rmse 0.003027078 max resid 0.06113366
## Run 89 stress 0.1774659
## Run 90 stress 0.1774987
## Run 91 stress 0.1776577
## Run 92 stress 0.1779797
## Run 93 stress 0.1782013
## Run 94 stress 0.1780573
## Run 95 stress 0.177513
## Run 96 stress 0.1779358
## Run 97 stress 0.1777387
## Run 98 stress 0.1774753
## Run 99 stress 0.1775329
## Run 100 stress 0.1771523
## ... Procrustes: rmse 0.003759436 max resid 0.06997966
## Run 101 stress 0.1771354
## ... Procrustes: rmse 0.004021796 max resid 0.06919823
## Run 102 stress 0.1778451
## Run 103 stress 0.1776829
## Run 104 stress 0.1776007
## Run 105 stress 0.1775902
## Run 106 stress 0.1772368
## ... Procrustes: rmse 0.004624966 max resid 0.08984473
## Run 107 stress 0.1769463
## ... Procrustes: rmse 0.003602331 max resid 0.0698107
## Run 108 stress 0.177111
## ... Procrustes: rmse 0.003825104 max resid 0.06896805
## Run 109 stress 0.1771403
## ... Procrustes: rmse 0.002514178 max resid 0.0485171
## Run 110 stress 0.1775283
## Run 111 stress 0.1772449
## ... Procrustes: rmse 0.003803221 max resid 0.0889332
## Run 112 stress 0.1774618
## Run 113 stress 0.1777964
## Run 114 stress 0.1775155
## Run 115 stress 0.1774619
## Run 116 stress 0.1785505
## Run 117 stress 0.1776302
## Run 118 stress 0.1845406
## Run 119 stress 0.1770995
## ... Procrustes: rmse 0.002801216 max resid 0.05579458
## Run 120 stress 0.1774644
## Run 121 stress 0.1784838
## Run 122 stress 0.1778096
## Run 123 stress 0.177512
## Run 124 stress 0.1777547
## Run 125 stress 0.1769157
## ... Procrustes: rmse 0.001531566 max resid 0.03292553
## Run 126 stress 0.1775584
## Run 127 stress 0.1785171
## Run 128 stress 0.1792614
## Run 129 stress 0.1778624
## Run 130 stress 0.1771238
## ... Procrustes: rmse 0.004285716 max resid 0.0692711
## Run 131 stress 0.1776481
## Run 132 stress 0.1776326
## Run 133 stress 0.178008
## Run 134 stress 0.1773478
## ... Procrustes: rmse 0.004307295 max resid 0.06931037
## Run 135 stress 0.1771425
## ... Procrustes: rmse 0.002265401 max resid 0.04850048
## Run 136 stress 0.1769131
## ... New best solution
## ... Procrustes: rmse 0.001018166 max resid 0.02214304
## Run 137 stress 0.1782359
## Run 138 stress 0.1830455
## Run 139 stress 0.1778075
## Run 140 stress 0.1774344
## Run 141 stress 0.1789437
## Run 142 stress 0.1773832
## ... Procrustes: rmse 0.00268917 max resid 0.06071233
## Run 143 stress 0.1788907
## Run 144 stress 0.1773622
## ... Procrustes: rmse 0.004259239 max resid 0.090938
## Run 145 stress 0.1777655
## Run 146 stress 0.1776458
## Run 147 stress 0.1775915
## Run 148 stress 0.1779381
## Run 149 stress 0.1773962
## ... Procrustes: rmse 0.00467722 max resid 0.09085539
## Run 150 stress 0.1770957
## ... Procrustes: rmse 0.003314654 max resid 0.05554797
## Run 151 stress 0.1769347
## ... Procrustes: rmse 0.002569835 max resid 0.0480624
## Run 152 stress 0.1770985
## ... Procrustes: rmse 0.003427061 max resid 0.05560988
## Run 153 stress 0.1782
## Run 154 stress 0.1774783
## Run 155 stress 0.1776591
## Run 156 stress 0.1841567
## Run 157 stress 0.1778844
## Run 158 stress 0.177388
## ... Procrustes: rmse 0.002757385 max resid 0.06053595
## Run 159 stress 0.1774947
## Run 160 stress 0.1776804
## Run 161 stress 0.1781307
## Run 162 stress 0.1774941
## Run 163 stress 0.1771227
## ... Procrustes: rmse 0.004347746 max resid 0.06907252
## Run 164 stress 0.1769432
## ... Procrustes: rmse 0.002708655 max resid 0.06928976
## Run 165 stress 0.1771415
## ... Procrustes: rmse 0.002308852 max resid 0.04839257
## Run 166 stress 0.1774944
## Run 167 stress 0.1779159
## Run 168 stress 0.1778524
## Run 169 stress 0.177497
## Run 170 stress 0.1774261
## Run 171 stress 0.1775396
## Run 172 stress 0.1772276
## ... Procrustes: rmse 0.004376215 max resid 0.09089875
## Run 173 stress 0.1774438
## Run 174 stress 0.179081
## Run 175 stress 0.1771697
## ... Procrustes: rmse 0.004335 max resid 0.07028166
## Run 176 stress 0.1776886
## Run 177 stress 0.178038
## Run 178 stress 0.1769415
## ... Procrustes: rmse 0.002693509 max resid 0.06956839
## Run 179 stress 0.1772532
## ... Procrustes: rmse 0.004987594 max resid 0.08612174
## Run 180 stress 0.1780175
## Run 181 stress 0.1780022
## Run 182 stress 0.1793155
## Run 183 stress 0.1774233
## Run 184 stress 0.1774982
## Run 185 stress 0.1777523
## Run 186 stress 0.1774556
## Run 187 stress 0.177965
## Run 188 stress 0.1835372
## Run 189 stress 0.177432
## Run 190 stress 0.1771443
## ... Procrustes: rmse 0.001991563 max resid 0.04848497
## Run 191 stress 0.1771511
## ... Procrustes: rmse 0.003686216 max resid 0.06979451
## Run 192 stress 0.1774968
## Run 193 stress 0.1773263
## ... Procrustes: rmse 0.003401501 max resid 0.05706404
## Run 194 stress 0.1771519
## ... Procrustes: rmse 0.003769808 max resid 0.06995944
## Run 195 stress 0.1775146
## Run 196 stress 0.1769457
## ... Procrustes: rmse 0.003723702 max resid 0.06996798
## Run 197 stress 0.1778236
## Run 198 stress 0.1779053
## Run 199 stress 0.1772096
## ... Procrustes: rmse 0.003711046 max resid 0.09169506
## Run 200 stress 0.1776086
## Run 201 stress 0.1775363
## Run 202 stress 0.1846823
## Run 203 stress 0.1777235
## Run 204 stress 0.1777307
## Run 205 stress 0.1780551
## Run 206 stress 0.1771218
## ... Procrustes: rmse 0.00412917 max resid 0.06872876
## Run 207 stress 0.1771398
## ... Procrustes: rmse 0.002477134 max resid 0.0483194
## Run 208 stress 0.17734
## ... Procrustes: rmse 0.00376764 max resid 0.05554373
## Run 209 stress 0.1777039
## Run 210 stress 0.1775306
## Run 211 stress 0.1779412
## Run 212 stress 0.1777198
## Run 213 stress 0.1779674
## Run 214 stress 0.1773448
## ... Procrustes: rmse 0.005422783 max resid 0.09162234
## Run 215 stress 0.1776661
## Run 216 stress 0.1771369
## ... Procrustes: rmse 0.004173637 max resid 0.06926683
## Run 217 stress 0.1773297
## ... Procrustes: rmse 0.003594641 max resid 0.06984964
## Run 218 stress 0.1772392
## ... Procrustes: rmse 0.004061257 max resid 0.09002815
## Run 219 stress 0.1777646
## Run 220 stress 0.1771759
## ... Procrustes: rmse 0.002838411 max resid 0.04789021
## Run 221 stress 0.1771567
## ... Procrustes: rmse 0.004334244 max resid 0.06813162
## Run 222 stress 0.1777114
## Run 223 stress 0.1785162
## Run 224 stress 0.1775866
## Run 225 stress 0.1773523
## ... Procrustes: rmse 0.004170587 max resid 0.0692641
## Run 226 stress 0.1773182
## ... Procrustes: rmse 0.003984145 max resid 0.07013213
## Run 227 stress 0.177206
## ... Procrustes: rmse 0.003788673 max resid 0.08864991
## Run 228 stress 0.1782295
## Run 229 stress 0.1773515
## ... Procrustes: rmse 0.004164924 max resid 0.07017405
## Run 230 stress 0.1775961
## Run 231 stress 0.1785413
## Run 232 stress 0.1797321
## Run 233 stress 0.1781377
## Run 234 stress 0.1839927
## Run 235 stress 0.1769431
## ... Procrustes: rmse 0.002719893 max resid 0.0697436
## Run 236 stress 0.1774071
## ... Procrustes: rmse 0.003998681 max resid 0.06915102
## Run 237 stress 0.1772094
## ... Procrustes: rmse 0.003923345 max resid 0.09175396
## Run 238 stress 0.1838455
## Run 239 stress 0.1779333
## Run 240 stress 0.1774057
## ... Procrustes: rmse 0.004010652 max resid 0.06949246
## Run 241 stress 0.1769367
## ... Procrustes: rmse 0.002624068 max resid 0.04858377
## Run 242 stress 0.1790692
## Run 243 stress 0.1779699
## Run 244 stress 0.1777464
## Run 245 stress 0.1772669
## ... Procrustes: rmse 0.005058909 max resid 0.09152404
## Run 246 stress 0.1769331
## ... Procrustes: rmse 0.003206283 max resid 0.06967267
## Run 247 stress 0.1787574
## Run 248 stress 0.1785889
## Run 249 stress 0.1769118
## ... New best solution
## ... Procrustes: rmse 0.0004503772 max resid 0.00943879
## ... Similar to previous best
## *** Solution reached##
## Call:
## metaMDS(comm = NoncoastalFive[, 6:106], k = 3, trymax = 1000)
##
## global Multidimensional Scaling using monoMDS
##
## Data: NoncoastalFive[, 6:106]
## Distance: bray
##
## Dimensions: 3
## Stress: 0.1769118
## Stress type 1, weak ties
## Two convergent solutions found after 249 tries
## Scaling: centring, PC rotation, halfchange scaling
## Species: expanded scores based on 'NoncoastalFive[, 6:106]'
## NMDS1 NMDS2 r2 Pr(>r)
## Year 0.99879 0.04917 0.0325 0.07 .
## JulianDate -0.40242 0.91546 0.6995 0.01 **
## Latitude -0.75648 -0.65402 0.0011 0.84
## Longitude -0.40393 -0.91479 0.0022 0.75
## totalArea_sqMile -0.74576 -0.66621 0.3672 0.01 **
## ELEVMEAN 0.93606 0.35184 0.1899 0.01 **
## SLPMEAN 0.92034 0.39113 0.1192 0.01 **
## wshdRain_mmyr -0.73380 -0.67936 0.3517 0.01 **
## ---
## Signif. codes: 0 '***' 0.001 '**' 0.01 '*' 0.05 '.' 0.1 ' ' 1
## Permutation: free
## Number of permutations: 99Plot with Stations: Non-Coastal
Season: Non-Coastal
##
## Call:
## mrpp(dat = bugsnms_noncoast[, 6:106], grouping = samplescoresenv_noncoast$Season, distance = "bray")
##
## Dissimilarity index: bray
## Weights for groups: n
##
## Class means and counts:
##
## Fall Spring
## delta 0.6252 0.6188
## n 346 338
##
## Chance corrected within-group agreement A: 0.04881
## Based on observed delta 0.622 and expected delta 0.6539
##
## Significance of delta: 0.001
## Permutation: free
## Number of permutations: 999Ecoregion: Non-Coastal
##
## Call:
## mrpp(dat = bugsnms_noncoast[, 6:106], grouping = samplescoresenv_noncoast$US_L3NAME, distance = "bray")
##
## Dissimilarity index: bray
## Weights for groups: n
##
## Class means and counts:
##
## Blue Ridge Central Appalachians Northern Piedmont Piedmont
## delta 0.5942 0.6021 0.641 0.6099
## n 154 40 101 137
## Ridge and Valley
## delta 0.657
## n 252
##
## Chance corrected within-group agreement A: 0.03989
## Based on observed delta 0.6278 and expected delta 0.6539
##
## Significance of delta: 0.001
## Permutation: free
## Number of permutations: 999Ecoregion separated by Season
Basin: Non-Coastal
##
## Call:
## mrpp(dat = bugsnms_noncoast[, 6:106], grouping = samplescoresenv_noncoast$Basin_Code, distance = "bray")
##
## Dissimilarity index: bray
## Weights for groups: n
##
## Class means and counts:
##
## Appomattox Chowan-Dismal James-Middle James-Upper New Potomac-Lower
## delta 0.5234 0.533 0.6089 0.6534 0.65 0.6371
## n 12 4 61 114 78 25
## Potomac-Shenandoah Rappahannock Roanoke Tennessee-Big Sandy
## delta 0.6547 0.6355 0.6094 0.5991
## n 41 122 87 16
## Tennessee-Clinch Tennessee-Holston Yadkin York
## delta 0.6243 0.6247 0.5727 0.5843
## n 50 53 4 17
##
## Chance corrected within-group agreement A: 0.03817
## Based on observed delta 0.629 and expected delta 0.6539
##
## Significance of delta: 0.001
## Permutation: free
## Number of permutations: 999Admin Region: Non-Coastal
##
## Call:
## mrpp(dat = bugsnms_noncoast[, 6:106], grouping = samplescoresenv_noncoast$ASSESS_REG, distance = "bray")
##
## Dissimilarity index: bray
## Weights for groups: n
##
## Class means and counts:
##
## BRRO NRO PRO SWRO VRO
## delta 0.642 0.6509 0.5783 0.6316 0.6428
## n 244 158 17 156 109
##
## Chance corrected within-group agreement A: 0.02092
## Based on observed delta 0.6402 and expected delta 0.6539
##
## Significance of delta: 0.001
## Permutation: free
## Number of permutations: 999##Bioregion: Non-Coastal
##
## Call:
## mrpp(dat = bugsnms_noncoast[, 6:106], grouping = samplescoresenv_noncoast$Bioregion, distance = "bray")
##
## Dissimilarity index: bray
## Weights for groups: n
##
## Class means and counts:
##
## Mountain Piedmont
## delta 0.6467 0.6334
## n 446 238
##
## Chance corrected within-group agreement A: 0.01815
## Based on observed delta 0.642 and expected delta 0.6539
##
## Significance of delta: 0.001
## Permutation: free
## Number of permutations: 999#Bioregion separated by Season
Sample Method: Non-Coastal
##
## Call:
## mrpp(dat = bugsnms_noncoast[, 6:106], grouping = samplescoresenv_noncoast$Gradient, distance = "bray")
##
## Dissimilarity index: bray
## Weights for groups: n
##
## Class means and counts:
##
## MACS Riffle
## delta 0.5603 0.653
## n 9 675
##
## Chance corrected within-group agreement A: 0.003271
## Based on observed delta 0.6518 and expected delta 0.6539
##
## Significance of delta: 0.001
## Permutation: free
## Number of permutations: 999Stream Order: Non-Coastal
##
## Call:
## mrpp(dat = bugsnms_noncoast[, 6:106], grouping = samplescoresenv_noncoast$Order, distance = "bray")
##
## Dissimilarity index: bray
## Weights for groups: n
##
## Class means and counts:
##
## 1 2 3 4 5
## delta 0.6253 0.6542 0.6189 0.5751 0.5404
## n 243 205 137 74 25
##
## Chance corrected within-group agreement A: 0.04556
## Based on observed delta 0.6241 and expected delta 0.6539
##
## Significance of delta: 0.001
## Permutation: free
## Number of permutations: 999Stream Order Categories: Non-coastal
##
## Call:
## mrpp(dat = bugsnms_noncoast[, 6:106], grouping = samplescoresenv_noncoast$StreamCate, distance = "bray")
##
## Dissimilarity index: bray
## Weights for groups: n
##
## Class means and counts:
##
## Large Medium Small
## delta 0.5683 0.6189 0.6463
## n 99 137 448
##
## Chance corrected within-group agreement A: 0.03734
## Based on observed delta 0.6295 and expected delta 0.6539
##
## Significance of delta: 0.001
## Permutation: free
## Number of permutations: 999Water Quality Standard Class: Non-Coastal
##
## Call:
## mrpp(dat = bugsnms_noncoast[, 6:106], grouping = samplescoresenv_noncoast$WQS_CLASS, distance = "bray")
##
## Dissimilarity index: bray
## Weights for groups: n
##
## Class means and counts:
##
## III IV V VI
## delta 0.6369 0.6438 0.6304 0.6007
## n 210 184 87 203
##
## Chance corrected within-group agreement A: 0.04084
## Based on observed delta 0.6272 and expected delta 0.6539
##
## Significance of delta: 0.001
## Permutation: free
## Number of permutations: 999Natural Trout Water WQS: Non-Coastal
##
## Call:
## mrpp(dat = bugsnms_noncoast[, 6:106], grouping = samplescoresenv_noncoast$WQS_TROUT, distance = "bray")
##
## Dissimilarity index: bray
## Weights for groups: n
##
## Class means and counts:
##
## Yes
## delta 0.6496 0.6215
## n 394 290
##
## Chance corrected within-group agreement A: 0.02479
## Based on observed delta 0.6377 and expected delta 0.6539
##
## Significance of delta: 0.001
## Permutation: free
## Number of permutations: 999Bioregion and Season
##
## Call:
## mrpp(dat = bugsnms_noncoast[, 6:106], grouping = samplescoresenv_noncoast$BioregionSeason, distance = "bray")
##
## Dissimilarity index: bray
## Weights for groups: n
##
## Class means and counts:
##
## MountainFall MountainSpring PiedmontFall PiedmontSpring
## delta 0.6224 0.6048 0.5882 0.6099
## n 225 221 121 117
##
## Chance corrected within-group agreement A: 0.06941
## Based on observed delta 0.6085 and expected delta 0.6539
##
## Significance of delta: 0.001
## Permutation: free
## Number of permutations: 999Bioregion, Stream Size and Season: Non-coastal
##
## Call:
## mrpp(dat = bugsnms_noncoast[, 6:106], grouping = samplescoresenv_noncoast$Bioregionsize, distance = "bray")
##
## Dissimilarity index: bray
## Weights for groups: n
##
## Class means and counts:
##
## LargeMountainFall LargeMountainSpring LargePiedmontFall
## delta 0.4813 0.5485 0.5099
## n 29 27 22
## LargePiedmontSpring MediumMountainFall MediumMountainSpring
## delta 0.5404 0.5719 0.5646
## n 21 51 50
## MediumPiedmontFall MediumPiedmontSpring SmallMountainFall
## delta 0.5618 0.6105 0.6095
## n 18 18 145
## SmallMountainSpring SmallPiedmontFall SmallPiedmontSpring
## delta 0.5764 0.5808 0.591
## n 144 81 78
##
## Chance corrected within-group agreement A: 0.1183
## Based on observed delta 0.5765 and expected delta 0.6539
##
## Significance of delta: 0.001
## Permutation: free
## Number of permutations: 999